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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ), 'gf_id' => 'HOM05D001054', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001054' ), 'data_identifier' => 'HOM05D001054', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001054', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p01450' => 'bna', 'A01p22840' => 'bna', 'A01p22850' => 'bna', 'A01p24360' => 'bna', 'A02p44260' => 'bna', 'A03p65210' => 'bna', 'A04p17660' => 'bna', 'A06p08960' => 'bna', 'A09p43130' => 'bna', 'A09p57120' => 'bna', 'Aa31LG1G15930' => 'aar', 'Aa31LG4G18420' => 'aar', 'Aa31LG6G14390' => 'aar', 'Aa31LG6G14450' => 'aar', 'Aa31LG7G13830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_368.879' => 'aag', 'Actinidia10185' => 'ach', 'Actinidia11990' => 'ach', 'Actinidia11995' => 'ach', 'Actinidia11996' => 'ach', 'Actinidia16441' => 'ach', 'Actinidia21234' => 'ach', 'Actinidia22681' => 'ach', 'Actinidia32824' => 'ach', 'Actinidia32829' => 'ach', 'Actinidia36439' => 'ach', 'Actinidia36442' => 'ach', 'Ah.02g125600' => 'amhyb', 'Ah.03g140300' => 'amhyb', 'AL1G62600' => 'aly', 'AL4G12880' => 'aly', 'AL4G12890' => 'aly', 'AL5G30060' => 'aly', 'AL5G41245' => 'aly', 'AL7G13080' => 'aly', 'AL7G13250' => 'aly', 'AL8G43950' => 'aly', 'Aqoxy2G00045' => 'aox', 'Aqoxy5G00617' => 'aox', 'Aqoxy5G00899' => 'aox', 'Aqoxy6G02700' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2RCZ08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RN2EL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5YK3TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AR4BCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8WASZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CJ051S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D29P6J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H4HJMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I59G3H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PTQD44' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PW7YYH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S94KHE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S9MPEY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SB8Z2H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TSV1ZH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UKA06W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V4EKGG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZXDB76' => 'arhy', 'AT2G23070' => 'ath', 'AT2G23080' => 'ath', 'AT2G48121' => 'ath', 'AT3G50000' => 'ath', 'AT4G37510' => 'ath', 'AT5G67380' => 'ath', 'ATR0019G038' => 'atr', 'ATR0030G014' => 'atr', 'ATR1096G061' => 'atr', 'Atru.chr13.808' => 'acertr', 'Atru.chr3.156' => 'acertr', 'Atru.chr3.165' => 'acertr', 'Atru.chr3.166' => 'acertr', 'Atru.chr3.185' => 'acertr', 'Atru.chr3.194' => 'acertr', 'Atru.chr3.195' => 'acertr', 'AUR62003980' => 'cqu', 'AUR62003981' => 'cqu', 'AUR62003982' => 'cqu', 'AUR62003990' => 'cqu', 'AUR62040256' => 'cqu', 'AUR62040267' => 'cqu', 'AUR62040268' => 'cqu', 'BcaB01g00646' => 'bca', 'BcaB05g23179' => 'bca', 'BcaB06g27881' => 'bca', 'BcaB08g35367' => 'bca', 'BcaC02g08569' => 'bca', 'BcaC03g18377' => 'bca', 'BcaC03g18382' => 'bca', 'BcaC04g22701' => 'bca', 'BcaC04g22702' => 'bca', 'BcaC04g23219' => 'bca', 'BcaC07g39467' => 'bca', 'BcaC07g41010' => 'bca', 'BcaC08g46771' => 'bca', 'BcaC08g46772' => 'bca', 'BcaC09g49993' => 'bca', 'BcaNung02059' => 'bca', 'BcaNung03665' => 'bca', 'BcaNung05084' => 'bca', 'BolC1t00157H' => 'bol', 'BolC1t02976H' => 'bol', 'BolC3t18327H' => 'bol', 'BolC4t26815H' => 'bol', 'BolC8t50130H' => 'bol', 'BolC8t51584H' => 'bol', 'BolC9t54532H' => 'bol', 'BraA01t00139Z' => 'bra', 'BraA01t02198Z' => 'bra', 'BraA01t02349Z' => 'bra', 'BraA03t15579Z' => 'bra', 'BraA04t17385Z' => 'bra', 'BraA09t39783Z' => 'bra', 'BraA09t41104Z' => 'bra', 'C01p01620' => 'bna', 'C01p05840' => 'bna', 'C01p30310' => 'bna', 'C02p64530' => 'bna', 'C02p64580' => 'bna', 'C04p52390' => 'bna', 'C05p32420' => 'bna', 'C06p12220' => 'bna', 'C07p62420' => 'bna', 'C08p25120' => 'bna', 'C08p40140' => 'bna', 'C09p10950' => 'bna', 'C09p16230' => 'bna', 'CAN.G1075.16' => 'can', 'CAN.G5315.1' => 'can', 'CAN.G775.16' => 'can', 'CAN.G852.2' => 'can', 'CANSAT01G1180' => 'cansat', 'CANSAT01G1629' => 'cansat', 'CANSAT01G2549' => 'cansat', 'CARHR114480' => 'chi', 'CARHR114490' => 'chi', 'CARHR159070' => 'chi', 'CARHR245910' => 'chi', 'CARHR280230' => 'chi', 'Carub.0004s0227' => 'cru', 'Carub.0004s0228' => 'cru', 'Carub.0005s1636' => 'cru', 'Carub.0007s0278' => 'cru', 'Carub.0008s2711' => 'cru', 'Ca_13929_v3' => 'car', 'Ca_22113_v3' => 'car', 'Ca_24707_v3' => 'car', 'Ca_24720_v3' => 'car', 'CBR_g29313' => 'cbr', 'Cc07_g06830' => 'ccan', 'Cc07_g06840' => 'ccan', 'Cc07_g06940' => 'ccan', 'Cc07_g06950' => 'ccan', 'Cc10_g05580' => 'ccan', 'CDE01G0087' => 'cde', 'CDE02G1321' => 'cde', 'CDE04G1953' => 'cde', 'CDE04G3286' => 'cde', 'CDE06G0111' => 'cde', 'CDE07G0975' => 'cde', 'Cfa004101' => 'cfa', 'Cfa004102' => 'cfa', 'Cfa004115' => 'cfa', 'Cfa022501' => 'cfa', 'Ciclev10001784m.g' => 'ccl', 'Ciclev10025341m.g' => 'ccl', 'Ciclev10025635m.g' => 'ccl', 'Ciclev10025683m.g' => 'ccl', 'CiPaw.01G006000' => 'cil', 'CiPaw.01G007000' => 'cil', 'CiPaw.01G007100' => 'cil', 'CiPaw.02G003600' => 'cil', 'CiPaw.02G004400' => 'cil', 'CiPaw.07G177100' => 'cil', 'ClCG01G017370' => 'cla', 'ClCG01G017380' => 'cla', 'ClCG01G017460' => 'cla', 'ClCG08G016370' => 'cla', 'COL.COLO4_11540' => 'col', 'COL.COLO4_11542' => 'col', 'COL.COLO4_11554' => 'col', 'COL.COLO4_28530' => 'col', 'Cpa.g.sc21.110' => 'cpa', 'Cpa.g.sc6.35' => 'cpa', 'Cpa.g.sc6.37' => 'cpa', 'Cpa.g.sc6.46' => 'cpa', 'Cpa.g.sc6.47' => 'cpa', 'Cre12.g549800' => 'cre', 'Cre14.g619166' => 'cre', 'Cre16.g665600' => 'cre', 'CsaV3_2G026240' => 'csa', 'CsaV3_6G043900' => 'csa', 'CsaV3_6G043910' => 'csa', 'CsaV3_6G044000' => 'csa', 'CSS0013552' => 'camsi', 'CSS0017738' => 'camsi', 'CSS0019351' => 'camsi', 'CSS0024742' => 'camsi', 'CSS0030463' => 'camsi', 'CSS0033693' => 'camsi', 'CSS0044537' => 'camsi', 'DCAR_010834' => 'dca', 'DCAR_010840' => 'dca', 'DCAR_021470' => 'dca', 'DCAR_025788' => 'dca', 'Dinv20258' => 'din', 'Dinv26904' => 'din', 'Dinv26915' => 'din', 'Dinv30078' => 'din', 'Duzib147G0207' => 'dzi', 'Duzib147G1167' => 'dzi', 'Duzib187G0850' => 'dzi', 'Duzib187G1174' => 'dzi', 'Duzib264G0458' => 'dzi', 'Duzib264G0621' => 'dzi', 'Duzib264G1292' => 'dzi', 'ECA238G1085' => 'eca', 'ECA238G4660' => 'eca', 'EL10Ac6g15637' => 'bvu', 'EL10Ac6g15648' => 'bvu', 'EL10Ac6g15649' => 'bvu', 'Eucgr.C03692' => 'egr', 'Eucgr.C03694' => 'egr', 'Eucgr.C03920' => 'egr', 'Eucgr.F00118' => 'egr', 'Eucgr.H02283' => 'egr', 'Eucgr.I00713' => 'egr', 'FAN02G1105' => 'fan', 'FAN05G0803' => 'fan', 'FAN05G5110' => 'fan', 'FAN09G3364' => 'fan', 'FAN14G3050' => 'fan', 'FAN14G4136' => 'fan', 'FAN19G0763' => 'fan', 'FAN19G1445' => 'fan', 'FAN19G3125' => 'fan', 'FAN20G2133' => 'fan', 'FAN23G1327' => 'fan', 'FAN23G1576' => 'fan', 'FAN23G1620' => 'fan', 'FAN24G1788' => 'fan', 'FAN26G0770' => 'fan', 'FAN26G1436' => 'fan', 'FAN26G3344' => 'fan', 'FAN27G0334' => 'fan', 'FAN28G0081' => 'fan', 'FAN28G0670' => 'fan', 'FAN28G2248' => 'fan', 'FvH4_1g17250' => 'fve', 'FvH4_1g17270' => 'fve', 'FvH4_1g17410' => 'fve', 'FvH4_2g33300' => 'fve', 'FvH4_6g05990' => 'fve', 'Glyma.01G192100' => 'gma', 'Glyma.01G192200' => 'gma', 'Glyma.05G104100' => 'gma', 'Glyma.05G104200' => 'gma', 'Glyma.05G104600' => 'gma', 'Glyma.11G049900' => 'gma', 'Glyma.11G050000' => 'gma', 'Glyma.17G161800' => 'gma', 'Glyma.17G163700' => 'gma', 'Gohir.A02G152600' => 'ghi', 'Gohir.A02G152700' => 'ghi', 'Gohir.A10G090200' => 'ghi', 'Gohir.A11G048100' => 'ghi', 'Gohir.A11G216300' => 'ghi', 'Gohir.A12G075000' => 'ghi', 'Gohir.A12G075200' => 'ghi', 'Gohir.D03G027500' => 'ghi', 'Gohir.D03G027600' => 'ghi', 'Gohir.D10G097900' => 'ghi', 'Gohir.D11G051700' => 'ghi', 'Gohir.D11G207100' => 'ghi', 'Gohir.D12G073200' => 'ghi', 'Gohir.D12G073300' => 'ghi', 'Gorai.003G029200' => 'gra', 'Gorai.003G029300' => 'gra', 'Gorai.007G056100' => 'gra', 'Gorai.007G222200' => 'gra', 'Gorai.008G080500' => 'gra', 'Gorai.008G080600' => 'gra', 'Gorai.011G107500' => 'gra', 'GSVIVG01000132001' => 'vvi', 'GSVIVG01000148001' => 'vvi', 'GSVIVG01000149001' => 'vvi', 'GSVIVG01009366001' => 'vvi', 'HanXRQChr07g0203871' => 'han', 'HanXRQChr09g0246721' => 'han', 'HanXRQChr14g0441851' => 'han', 'HanXRQChr14g0441861' => 'han', 'HanXRQChr14g0449481' => 'han', 'Haze_15298' => 'cav', 'Haze_15309' => 'cav', 'Haze_15310' => 'cav', 'Haze_22307' => 'cav', 'Haze_27190' => 'cav', 'Hma1.2p1_0017F.1_g012090' => 'hma', 'Hma1.2p1_1377F.1_g279090' => 'hma', 'HPP92_017544' => 'vpl', 'HPP92_017568' => 'vpl', 'HPP92_018502' => 'vpl', 'HPP92_018753' => 'vpl', 'HPP92_026567' => 'vpl', 'Hund13931' => 'sun', 'Hund13932' => 'sun', 'Hund13940' => 'sun', 'Hund16385' => 'sun', 'Lalb_Chr05g0213541' => 'lal', 'Lalb_Chr05g0213551' => 'lal', 'Lalb_Chr05g0225961' => 'lal', 'Lalb_Chr05g0225971' => 'lal', 'Lalb_Chr05g0226021' => 'lal', 'Lalb_Chr09g0323501' => 'lal', 'Lalb_Chr09g0323511' => 'lal', 'Lalb_Chr09g0334061' => 'lal', 'Lalb_Chr16g0378791' => 'lal', 'Lalb_Chr16g0389111' => 'lal', 'Lalb_Chr16g0389201' => 'lal', 'Lj2g0007837' => 'lja', 'Lj2g0018988' => 'lja', 'Lj4A160G58' => 'lonja', 'Lj4A161G34' => 'lonja', 'Lj4A68T49' => 'lonja', 'Lj4g0002812' => 'lja', 'Lj4g0019986' => 'lja', 'Lj4g0020247' => 'lja', 'Lj7A88T35' => 'lonja', 'Lj7A92G9' => 'lonja', 'Lj7C88G8' => 'lonja', 'Lsat_1_v5_gn_1_126920' => 'lsa', 'Lsat_1_v5_gn_1_127100' => 'lsa', 'Lsat_1_v5_gn_2_82920' => 'lsa', 'Lsat_1_v5_gn_2_83681' => 'lsa', 'Lsat_1_v5_gn_2_83701' => 'lsa', 'Lsat_1_v5_gn_4_160921' => 'lsa', 'Manes.05G180400' => 'mes', 'Manes.12G111700' => 'mes', 'Manes.13G112900' => 'mes', 'Manes.13G113500' => 'mes', 'Manes.13G113600' => 'mes', 'Mapoly0005s0153' => 'mpo', 'Mapoly0081s0083' => 'mpo', 'MBI16_g00093_MAGBIO' => 'mbi', 'MBI19_g10811_MAGBIO' => 'mbi', 'MCO15G464' => 'mco', 'MD02G1182400' => 'mdo', 'MD02G1183300' => 'mdo', 'MD08G1087400' => 'mdo', 'MD08G1087500' => 'mdo', 'MD15G1072400' => 'mdo', 'MD15G1293600' => 'mdo', 'MD15G1293700' => 'mdo', 'MD15G1295000' => 'mdo', 'MD15G1314700' => 'mdo', 'Medtr4g095400' => 'mtr', 'Medtr4g095410' => 'mtr', 'Medtr4g095670' => 'mtr', 'Medtr5g015830' => 'mtr', 'Medtr5g016070' => 'mtr', 'MELO3C007615.2' => 'cme', 'MELO3C007616.2' => 'cme', 'MELO3C007623.2' => 'cme', 'MELO3C010816.2' => 'cme', 'Migut.C00498' => 'egut', 'Migut.H00367' => 'egut', 'Migut.L00199' => 'egut', 'Migut.L00205' => 'egut', 'MSTRG.15361' => 'ama', 'MSTRG.23684' => 'ama', 'MSTRG.23690' => 'ama', 'MSTRG.23692' => 'ama', 'MSTRG.25044' => 'ama', 'MSTRG.3465' => 'ama', 'Nitab4.5_0000284g0060' => 'nta', 'Nitab4.5_0000651g0030' => 'nta', 'Nitab4.5_0001119g0050' => 'nta', 'Nitab4.5_0001772g0010' => 'nta', 'Nitab4.5_0002331g0050' => 'nta', 'Nitab4.5_0002331g0060' => 'nta', 'Nitab4.5_0006689g0010' => 'nta', 'Nitab4.5_0006689g0020' => 'nta', 'Nn1g04595' => 'nnu', 'Nn1g04615' => 'nnu', 'Nn5g30521' => 'nnu', 'Nn5g30545' => 'nnu', 'Nn7g37208' => 'nnu', 'Oeu013280.1' => 'oeu', 'Oeu013289.1' => 'oeu', 'Oeu038700.2' => 'oeu', 'Oeu038701.1' => 'oeu', 'Oeu048576.1' => 'oeu', 'Oeu050273.1' => 'oeu', 'Oeu050864.1' => 'oeu', 'Os01g0810100' => 'osa', 'Os03g0207300' => 'osa', 'Os03g0762000' => 'osa', 'Os03g0763000' => 'osa', 'Os07g0114400' => 'osa', 'Peaxi162Scf00264g00324' => 'pax', 'Peaxi162Scf00365g00095' => 'pax', 'Peaxi162Scf00365g00936' => 'pax', 'Peaxi162Scf00790g00017' => 'pax', 'PGR004G0129' => 'pgr', 'PGR083G1156' => 'pgr', 'PGR102G0167' => 'pgr', 'PGR102G2526' => 'pgr', 'PGSC0003DMG400023692' => 'stu', 'PGSC0003DMG400024939' => 'stu', 'Phvul.002G012600' => 'pvu', 'Phvul.002G012700' => 'pvu', 'Phvul.003G235900' => 'pvu', 'Phvul.003G236900' => 'pvu', 'Phvul.003G237100' => 'pvu', 'Potri.005G145900' => 'ptr', 'Potri.005G146000' => 'ptr', 'Potri.007G052800' => 'ptr', 'Potri.007G053000' => 'ptr', 'Potri.007G054100' => 'ptr', 'Pp3c17_9060' => 'ppa', 'Pp3c1_15310' => 'ppa', 'Pp3c1_15460' => 'ppa', 'Pp3c2_21130' => 'ppa', 'Pp3c2_21250' => 'ppa', 'Pp3c5_10700' => 'ppa', 'PRCOL_00002286' => 'pco', 'Prupe.1G425000' => 'ppe', 'Prupe.6G222700' => 'ppe', 'Prupe.6G223800' => 'ppe', 'Prupe.6G223900' => 'ppe', 'Psat0s1692g0080' => 'psa', 'Psat0ss839g0160' => 'psa', 'Psat2g170280' => 'psa', 'Psat4g083600' => 'psa', 'Psat7g101560' => 'psa', 'PSO017G0338' => 'pso', 'PSO017G3170' => 'pso', 'PSO170G1106' => 'pso', 'PSO170G2094' => 'pso', 'PSO541G3069' => 'pso', 'PSO541G3305' => 'pso', 'PSO541G5579' => 'pso', 'PSO675G2247' => 'pso', 'PSO675G3579' => 'pso', 'PSO675G6455' => 'pso', 'QL06p039765' => 'qlo', 'QL06p039773' => 'qlo', 'QL06p039778' => 'qlo', 'QL12p037598' => 'qlo', 'RcHm_v2.0_Chr2g0107441' => 'rch', 'RcHm_v2.0_Chr2g0107461' => 'rch', 'RcHm_v2.0_Chr2g0107601' => 'rch', 'RcHm_v2.0_Chr4g0408851' => 'rch', 'RcHm_v2.0_Chr4g0423111' => 'rch', 'RcHm_v2.0_Chr5g0055571' => 'rch', 'RcHm_v2.0_Chr6g0286251' => 'rch', 'RcHm_v2.0_Chr6g0309321' => 'rch', 'Rhsim06G0060100' => 'rsi', 'Rhsim08G0094700' => 'rsi', 'Rhsim10G0102900' => 'rsi', 'Rhsim10G0103600' => 'rsi', 'Rhsim10G0103800' => 'rsi', 'Sabra05G0116600' => 'sbr', 'Sabra05G0116700' => 'sbr', 'Sabra07G0046600' => 'sbr', 'Sabra07G0046700' => 'sbr', 'SalBow1G8009' => 'sbo', 'SalBow5G4538' => 'sbo', 'SalBow5G5282' => 'sbo', 'SalBow5G5627' => 'sbo', 'SalBow6G1211' => 'sbo', 'SalBow7G0628' => 'sbo', 'Sc07g0007300' => 'sci', 'Sc16g0000070' => 'sci', 'Sc16g0000150' => 'sci', 'Sc16g0004970' => 'sci', 'Sed0003206' => 'sed', 'Sed0005098' => 'sed', 'Sed0005828' => 'sed', 'Sed0006553' => 'sed', 'Sed0007246' => 'sed', 'Sed0007349' => 'sed', 'Sed0014779' => 'sed', 'Sed0024086' => 'sed', 'Sed0024674' => 'sed', 'SEGI_10508' => 'sgi', 'SEGI_12901' => 'sgi', 'SEGI_17780' => 'sgi', 'SEGI_23221' => 'sgi', 'SEGI_24256' => 'sgi', 'SEGI_29234' => 'sgi', 'SGA_v2.0_scaffold13G06419' => 'sas', 'SGA_v2.0_scaffold15G07420' => 'sas', 'SGA_v2.0_scaffold15G07434' => 'sas', 'SGA_v2.0_scaffold72G24085' => 'sas', 'SGA_v2.0_scaffold72G24093' => 'sas', 'SGA_v2.0_scaffold72G24096' => 'sas', 'SGA_v2.0_scaffold90G27713' => 'sas', 'SHI51033' => 'shi', 'SHI51683' => 'shi', 'SMO115G0052' => 'smo', 'SMO119G0428' => 'smo', 'Solyc02g064700.3' => 'sly', 'Solyc02g092640.4' => 'sly', 'Solyc03g044140.3' => 'sly', 'Solyc09g056270.3' => 'sly', 'Solyc10g080040.3' => 'sly', 'Sopen02g014800' => 'spe', 'Sopen02g037190' => 'spe', 'Sopen03g008050' => 'spe', 'Sopen10g030650' => 'spe', 'Sp4g02090' => 'spa', 'Sp4g02100' => 'spa', 'Sp5g12100' => 'spa', 'Sp7g35190' => 'spa', 'TAR376G0739' => 'tar', 'TAR381G0112' => 'tar', 'TAR381G0308' => 'tar', 'TAR625G0144' => 'tar', 'TAR625G0225' => 'tar', 'TAR628G0239' => 'tar', 'TAR628G0827' => 'tar', 'TAR628G0943' => 'tar', 'THA.LOC104807623' => 'tha', 'THA.LOC104807624' => 'tha', 'THA.LOC104807626' => 'tha', 'THA.LOC104819875' => 'tha', 'THA.LOC104821234' => 'tha', 'THA.LOC104827539' => 'tha', 'Thecc.01G069000' => 'tca', 'Thecc.01G069100' => 'tca', 'Thecc.01G070500' => 'tca', 'Thecc.01G070600' => 'tca', 'Thecc.08G091400' => 'tca', 'Thhalv10000167m.g' => 'esa', 'Thhalv10000237m.g' => 'esa', 'Thhalv10004294m.g' => 'esa', 'Thhalv10010420m.g' => 'esa', 'Thhalv10024858m.g' => 'esa', 'TPR.G20955' => 'tpr', 'TPR.G20967' => 'tpr', 'TPR.G23864' => 'tpr', 'TPR.G23882' => 'tpr', 'TPR.G24268' => 'tpr', 'TWI09G0059' => 'twi', 'TWI09G0178' => 'twi', 'TWI09G1094' => 'twi', 'TWI12G0774' => 'twi', 'TWI12G0942' => 'twi', 'TWI53G0308' => 'twi', 'TWI53G1550' => 'twi', 'TWI73G0965' => 'twi', 'unitig_0.g506' => 'ugi', 'unitig_736.g22605' => 'ugi', 'unitig_899.g14580' => 'ugi', 'unitig_899.g14583' => 'ugi', 'vmacro05386' => 'vma', 'vmacro05387' => 'vma', 'vmacro05388' => 'vma', 'vmacro18000' => 'vma', 'vmacro21450' => 'vma', 'VMungo0251G1033' => 'vmu', 'VMungo0251G1497' => 'vmu', 'VMungo0251G2465' => 'vmu', 'VMungo1215G1297' => 'vmu', 'VMungo1215G2035' => 'vmu', 'VMungo1383G2184' => 'vmu', 'Zm00001eb040080' => 'zma', 'Zm00001eb058230' => 'zma', 'Zm00001eb058320' => 'zma', 'Zm00001eb089290' => 'zma', 'Zm00001eb118100' => 'zma', 'Zm00001eb150280' => 'zma', 'Zm00001eb214290' => 'zma', 'Zm00001eb273410' => 'zma', 'Zm00001eb298700' => 'zma' ) $gf_id = 'HOM05D001054' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001054' ) $data_identifier = 'HOM05D001054' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 11, 'amhyb' => (int) 2, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 18, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 7, 'bca' => (int) 18, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 6, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 4, 'dzi' => (int) 7, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 6, 'nta' => (int) 8, 'nnu' => (int) 5, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 10, 'qlo' => (int) 4, 'rch' => (int) 8, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 6, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 6, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb298700' $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